☰ Navigation Tabs
ZnFs 3-11 of CCCTC-binding factor (CTCF) Complexed with 35mer DNA 35-4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5UND composite with 5KKQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 292 0.2 M Sodium malonate pH 5.0,
15-22% w/v PEG 3,350
Crystal Properties Matthews coefficient Solvent content 3.29 62.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 352.07 α = 90 b = 67.768 β = 92.59 c = 61.194 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER X 16M 2020-09-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.00000 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 3.12 41.86 100 0.076 0.985 11 27.1 49980
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.12 3.23 99.8 0.703 0.397 1.2 11.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3.12 41.86 1.33 49124 2442 97.75 0.2412 0.2396 0.2432 0.2714 0.2715 185.34
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 24.3384 f_angle_d 0.4717 f_chiral_restr 0.0313 f_bond_d 0.0027 f_plane_restr 0.0024
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4051 Nucleic Acid Atoms 2856 Solvent Atoms 15 Heterogen Atoms 19
Software Software Software Name Purpose SERGUI data collection PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing